leiden

Turn any codebase, with its docs, SQL schemas, configs, and PDFs, into a queryable knowledge graph. A /graphify skill for Claude Code, Cursor, Codex, and Gemini CLI: local deterministic AST parsing, every edge explained, no vector store.

Operational Database for AI Agents Provide causality lineage, DAG, and State Replay , build to make AI Agents auditable Reliable and EU AI ACT compliant

Implementation of the Louvain and Leiden community detection algorithms.

MiCV is a python dash-based web-application that enables researchers to upload raw scRNA-seq data and perform filtering, analysis, and manual annotation.

An implementation of Hierarchical Incremental Tree Leiden Community Detection - https://arxiv.org/abs/2601.08554

Leiden community detection algorithm in graphs

Fast single-cell and spatial transcriptomics in Rust. 24x faster than Scanpy on compute-bound steps.

A LaTeX template for PhD theses

This research focuses on group detection and collaboration analysis among GitHub developers. It builds a commit-based collaboration network, where nodes represent developers and edges indicate joint contributions to repositories.

WIKI: https://github.com/SqueezyDough/functional-programming/wiki/Functional-programming

FilWordNet web portal — a language resource for Filipino and Philippine English built from text analysis network science and natural language processing

Proof-of-concept migration from a relational database to MongoDB for "Jotun's Lair", a fictional MMO wiki. Covers REST API endpoint implementation in Python, advanced aggregation pipelines (outlier detection, percentiles, graph data) and schema evolution with design patterns.

Community detection evaluation across 7+ benchmark datasets with Louvain, Leiden, and Infomap

Scalable ensemble clustering

SF 311 latent cluster atlas — photos → captions → embeddings → Leiden + UMAP, plus embedding-matched causal estimates of neighborhood-level response delays

A complete single-cell RNA-seq analysis pipeline using Scanpy on 10x Genomics PBMC data, including clustering, UMAP visualization, and marker gene detection.

Small scripts for various problems during the SP1 (Statistical Physics 1) course at Leiden University.

Basic scRNA-seq preprocessing and clustering using Scanpy on bone marrow mononuclear cells from healthy donors

The Great Bitwise Bake Off_Trent: Evolutionary Algorithm that creates novel and unexcpected cookie recipes